These projects have been developed as a result of studying at Birkbeck College, UK
This is a python library to produce geoemntric analyses of protein structures, including the
secondary structure information from dssp and the electron density information from ccp4 files where available.
The images produced range from a simple Ramachandran plot than can be coloured on for example secondary structure,
electron density or B-Factor, to say, a correlation of number of electrons against B-Factor.
The library contains some pre-created reports so the code to create seom fairly involved reports is minimal.
PsuGeomtery help and documentaiton is here
Density Flight is a windows application to view the inside of an electron density matrix. The application
allows you to navigate around like a flight simulator, viewing atoms, bonds between atoms,
finding density peaks, rotateing in the space to seek planar atoms.
The application can currently be downloaded from github and built in Vsiual Studio 2019 (C#)
It will be available for beta testing in the windows store shortly.
Density Flight help and documentaiton is here
These links show some examples of images and reports produced by PsuGeometry:
| PdbCode | Resolution | Pdb Link | PDBe Link |
| 1tt8 | 1.0 | Link to PDB | Link to PDBe |
| Row 8 | ||
| Row 9 | ||
| Row 10 | ||
| Row 14 | ||
| Row 15 | ||
Contact Rachel Alcraft by email,
(Rachel's email)
Return to Rachel's home page -
rachelalcraft.github.io
For notes on citations for this work click here